In vertebrates, the genes encoding the class of transcription factors called homeobox genes are found in clusters named A, B, C, and D on four separate chromosomes. Expression of these proteins is spatially and temporally regulated during embryonic development. This gene is part of the A cluster on chromosome 7 and encodes a DNA-binding transcription factor which may regulate g... See more...

Aliases for HOXA6 Gene

Aliases for HOXA6 Gene

  • Homeobox A6 2 3 5
  • Homeobox Protein Hox-1B 3 4
  • Homeobox Protein Hox-A6 3 4
  • Homeo Box A6 2 3
  • HOX1B 3 4
  • Homeobox Protein HOXA6 3
  • Homeo Box 1B 3
  • HOX1.2 3
  • HOX1 3

External Ids for HOXA6 Gene

Previous HGNC Symbols for HOXA6 Gene

  • HOX1B
  • HOX1

Previous GeneCards Identifiers for HOXA6 Gene

  • GC07M026827
  • GC07M026927
  • GC07M026958
  • GC07M027151
  • GC07M027065
  • GC07M027185

Summaries for HOXA6 Gene

Entrez Gene Summary for HOXA6 Gene

  • In vertebrates, the genes encoding the class of transcription factors called homeobox genes are found in clusters named A, B, C, and D on four separate chromosomes. Expression of these proteins is spatially and temporally regulated during embryonic development. This gene is part of the A cluster on chromosome 7 and encodes a DNA-binding transcription factor which may regulate gene expression, morphogenesis, and differentiation. [provided by RefSeq, Jul 2008]

GeneCards Summary for HOXA6 Gene

HOXA6 (Homeobox A6) is a Protein Coding gene. Diseases associated with HOXA6 include Meningioma, Familial. Gene Ontology (GO) annotations related to this gene include DNA-binding transcription factor activity and sequence-specific DNA binding. An important paralog of this gene is HOXB6.

UniProtKB/Swiss-Prot Summary for HOXA6 Gene

  • Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Gene Wiki entry for HOXA6 Gene

Additional gene information for HOXA6 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for HOXA6 Gene

Genomics for HOXA6 Gene

GeneHancer (GH) Regulatory Elements for HOXA6 Gene

Promoters and enhancers for HOXA6 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH07J027095 Promoter/Enhancer 3 VISTA UCNEbase EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 507.7 +12.4 12442 86.3 EP300 HNRNPK ZNF217 CTCF ZSCAN5C TCF12 POLR2G USF1 NCOR1 PHF8 HOXA2 HOXA9 HOXA10 HOXA1 HOXA3 HOXA6 HOXA4 HOXA5 HOXA7 HNRNPA2B1
GH07J026862 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 11.8 +286.8 286803 4 ZNF217 SIN3A TCF12 NRF1 USF1 POLR2G SP1 GTF2E2 PHF8 PHB2 SKAP2 lnc-EVX1-8 lnc-HOXA1-1 HOTAIRM1 HOXA5 HOXA-AS3 HOXA4 HOXA3 HOXA6 HOXA1
GH07J026855 Promoter/Enhancer 1.3 Ensembl ENCODE dbSUPER 12.2 +293.1 293055 4.8 CTBP1 ZNF341 NCOR1 NFIC ZBTB17 ZNF384 MAFF ZFHX2 TAL1 MAFK HOTAIRM1 HOXA5 HOXA-AS3 HOXA4 HOXA3 HOXA6 HOXA1 HOXA2 HOXA-AS2 SKAP2
GH07J026853 Enhancer 0.9 Ensembl ENCODE dbSUPER 12 +296.4 296403 1.2 CTCF RAD21 SMC3 BMI1 REPIN1 ZNF654 PRDM6 KLF16 MIXL1 EZH2 HOXA5 HOXA-AS3 HOXA4 HOXA3 HOXA6 HOTAIRM1 HOXA1 lnc-HOXA1-1 L13715-025 SKAP2
GH07J026860 Enhancer 0.7 ENCODE dbSUPER 11.8 +290.1 290066 0.2 CTCF RAD21 FOS JUND IKZF3 ZNF654 SMC3 ELF3 EZH2 HOXA-AS3 HOXA4 HOXA5 HOXA3 HOXA6 HOTAIRM1 HOXA1 HOXA2 HOXA-AS2 lnc-HOXA1-1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HOXA6 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for HOXA6

Top Transcription factor binding sites by QIAGEN in the HOXA6 gene promoter:
  • AP-2alpha
  • AP-2alphaA
  • AP-2beta
  • AP-2gamma
  • c-Myb
  • p53
  • Sp1

Genomic Locations for HOXA6 Gene

Genomic Locations for HOXA6 Gene
chr7:27,145,396-27,150,603
(GRCh38/hg38)
Size:
5,208 bases
Orientation:
Minus strand
chr7:27,185,015-27,190,222
(GRCh37/hg19)
Size:
5,208 bases
Orientation:
Minus strand

Genomic View for HOXA6 Gene

Genes around HOXA6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HOXA6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HOXA6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HOXA6 Gene

Proteins for HOXA6 Gene

  • Protein details for HOXA6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P31267-HXA6_HUMAN
    Recommended name:
    Homeobox protein Hox-A6
    Protein Accession:
    P31267
    Secondary Accessions:
    • A4D192
    • Q2M3G3
    • Q9UPM0

    Protein attributes for HOXA6 Gene

    Size:
    233 amino acids
    Molecular mass:
    26339 Da
    Quaternary structure:
    No Data Available

neXtProt entry for HOXA6 Gene

Post-translational modifications for HOXA6 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HOXA6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HOXA6 Gene

Domains & Families for HOXA6 Gene

Gene Families for HOXA6 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for HOXA6 Gene

Blocks:
  • Homeobox protein, antennapedia type
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for HOXA6 Gene

GenScript: Design optimal peptide antigens:
  • Homeobox protein Hox-1B (HXA6_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P31267

UniProtKB/Swiss-Prot:

HXA6_HUMAN :
  • Belongs to the Antp homeobox family.
Family:
  • Belongs to the Antp homeobox family.
genes like me logo Genes that share domains with HOXA6: view

Function for HOXA6 Gene

Molecular function for HOXA6 Gene

UniProtKB/Swiss-Prot Function:
Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.
GENATLAS Biochemistry:
homeo box A6(1B),homologous to mouse Hox-1.2,Drosophila Antp,Ubx,abd-A

Phenotypes From GWAS Catalog for HOXA6 Gene

Gene Ontology (GO) - Molecular Function for HOXA6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000980 RNA polymerase II distal enhancer sequence-specific DNA binding IBA 21873635
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific NAS 19274049
GO:0003677 DNA binding IEA --
GO:0003700 DNA-binding transcription factor activity IEA --
GO:0043565 sequence-specific DNA binding IEA --
genes like me logo Genes that share ontologies with HOXA6: view
genes like me logo Genes that share phenotypes with HOXA6: view

Animal Models for HOXA6 Gene

MGI Knock Outs for HOXA6:

Animal Model Products

CRISPR Products

miRNA for HOXA6 Gene

miRTarBase miRNAs that target HOXA6

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HOXA6

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HOXA6 Gene

Localization for HOXA6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HOXA6 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for HOXA6 gene
Compartment Confidence
nucleus 5
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (3)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for HOXA6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000790 nuclear chromatin ISA --
GO:0005634 nucleus IBA 21873635
GO:0005654 nucleoplasm IDA --
GO:0016607 nuclear speck IDA --
genes like me logo Genes that share ontologies with HOXA6: view

Pathways & Interactions for HOXA6 Gene

PathCards logo

SuperPathways for HOXA6 Gene

No Data Available

Gene Ontology (GO) - Biological Process for HOXA6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006357 regulation of transcription by RNA polymerase II IEA --
GO:0007275 multicellular organism development IEA --
GO:0009952 anterior/posterior pattern specification IEA,IBA 21873635
GO:0048704 embryonic skeletal system morphogenesis IEA --
genes like me logo Genes that share ontologies with HOXA6: view

No data available for Pathways by source and SIGNOR curated interactions for HOXA6 Gene

Drugs & Compounds for HOXA6 Gene

No Compound Related Data Available

Transcripts for HOXA6 Gene

mRNA/cDNA for HOXA6 Gene

1 REFSEQ mRNAs :
4 NCBI additional mRNA sequence :
2 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HOXA6

Alternative Splicing Database (ASD) splice patterns (SP) for HOXA6 Gene

No ASD Table

Relevant External Links for HOXA6 Gene

GeneLoc Exon Structure for
HOXA6

Expression for HOXA6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for HOXA6 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HOXA6 Gene

This gene is overexpressed in Fallopian Tube (x7.1) and Colon - Transverse (x5.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for HOXA6 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for HOXA6

SOURCE GeneReport for Unigene cluster for HOXA6 Gene:

Hs.679517
genes like me logo Genes that share expression patterns with HOXA6: view

No data available for Protein differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for HOXA6 Gene

Orthologs for HOXA6 Gene

This gene was present in the common ancestor of animals.

Orthologs for HOXA6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HOXA6 31 30
  • 99.86 (n)
OneToOne
dog
(Canis familiaris)
Mammalia HOXA6 31 30
  • 97.14 (n)
OneToOne
cow
(Bos Taurus)
Mammalia HOXA6 31 30
  • 95.85 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia LOC100909604 30
  • 94.56 (n)
mouse
(Mus musculus)
Mammalia Hoxa6 17 31 30
  • 92.96 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia HOXA6 31
  • 91 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia HOXA6 31
  • 90 (a)
OneToOne
chicken
(Gallus gallus)
Aves HOXA6 31 31 31
  • 87 (a)
OneToMany
LOC100858434 30
  • 81.39 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia hoxa6 30
  • 68.54 (n)
fruit fly
(Drosophila melanogaster)
Insecta Antp 31 32
  • 22 (a)
OneToMany
Species where no ortholog for HOXA6 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for HOXA6 Gene

ENSEMBL:
Gene Tree for HOXA6 (if available)
TreeFam:
Gene Tree for HOXA6 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for HOXA6: view image

Paralogs for HOXA6 Gene

(12) SIMAP similar genes for HOXA6 Gene using alignment to 1 proteins:

  • HXA6_HUMAN
genes like me logo Genes that share paralogs with HOXA6: view

Variants for HOXA6 Gene

Additional dbSNP identifiers (rs#s) for HOXA6 Gene

Structural Variations from Database of Genomic Variants (DGV) for HOXA6 Gene

Variant ID Type Subtype PubMed ID
dgv1094n67 CNV gain 20364138
dgv11244n54 CNV loss 21841781
nsv526526 CNV loss 19592680
nsv5674 CNV deletion 18451855
nsv606465 CNV loss 21841781
nsv7393 OTHER inversion 18451855
nsv824042 CNV gain 20364138

Variation tolerance for HOXA6 Gene

Residual Variation Intolerance Score: 26.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.34; 7.47% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HOXA6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HOXA6

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for HOXA6 Gene

Disorders for HOXA6 Gene

MalaCards: The human disease database

(1) MalaCards diseases for HOXA6 Gene - From: DISEASES

Disorder Aliases PubMed IDs
meningioma, familial
  • meningioma, familial, susceptibility to
- elite association - COSMIC cancer census association via MalaCards
Search HOXA6 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for HOXA6

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with HOXA6: view

No data available for UniProtKB/Swiss-Prot and Genatlas for HOXA6 Gene

Publications for HOXA6 Gene

  1. High-density association study of 383 candidate genes for volumetric BMD at the femoral neck and lumbar spine among older men. (PMID: 19453261) Yerges LM … MrOS Research Group (Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research 2009) 3 41 54
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 54
  3. The DNA sequence of human chromosome 7. (PMID: 12853948) Hillier LW … Wilson RK (Nature 2003) 3 4 54
  4. Human chromosome 7: DNA sequence and biology. (PMID: 12690205) Scherer SW … Tsui LC (Science (New York, N.Y.) 2003) 3 4 54
  5. Vertebrate homeobox gene nomenclature. (PMID: 1358459) Scott MP (Cell 1992) 2 3 54

Products for HOXA6 Gene

Sources for HOXA6 Gene